Awesome, thanks a bunch I will try it out. Just out of curiosity what preprocessing would you recommend to clean up the signal (filtering, interpolation, downsampling)? Cheers Amrit
On Tue, Jul 26, 2016 at 1:50 PM, Glasser, Matthew <glass...@wustl.edu> wrote: > There is a wb_command function that does this, wb_command > -cifti-smoothing. We don’t recommend smoothing as a general preprocessing > practice however. > > Peace, > > Matt. > > From: Amrit Kashyap <amrit...@gmail.com> > Date: Tuesday, July 26, 2016 at 12:47 PM > To: "Elam, Jennifer" <e...@wustl.edu> > Cc: Matt Glasser <glass...@wustl.edu>, "hcp-users@humanconnectome.org" < > hcp-users@humanconnectome.org> > > Subject: Re: [HCP-Users] Workbench Tutorial Data > > Okay, I will use the regular data then and try to process it so that my > algorithm runs on it. Do you guys know by any chance a good way to project > the surface data contained in the cifti-files into a flat 2D map given in > the flat gifti files? (I am trying to get the cifti data into a 2D matrix > so I can convolve with a Gaussian kernel). > > On Tue, Jul 26, 2016 at 12:46 PM, Elam, Jennifer <e...@wustl.edu> wrote: > >> Hi Amrit, >> >> The data in Scene 4 of the WB Tutorial data is almost 5 years old now, >> CP10101 is a subject from the pilot phase of the HCP, well before we were >> releasing data and well before we were cleaning the data with FIX. The >> reason that scene is there is simply to display the concept of BOLD >> fluctuations in an fMRI time series-- it is not the really meant to be data >> that you use any analysis tools on since we have since released several >> improved versions of the fMRI data on now over 800 subjects. >> >> >> The Group Average Workbench dataset available in ConnectomeDB >> <https://db.humanconnectome.org/data/projects/HCP_900> is up to date >> with data from the current 900 Subjects Release (of December 2015) >> >> >> Yes, there is extensive documentation on the many individual subject and >> group average analyzed data currently available for download in >> ConnectomeDB in the 900 Subjects Reference Manual >> <https://www.humanconnectome.org/documentation/S900/HCP_S900_Release_Reference_Manual.pdf> >> (you can also get to it in the Documentation section of the HCP public >> website) and more info in the publication references therein. It's a long >> document, but there's a lot of valuable information there. >> >> >> Best, >> >> Jenn >> >> >> Jennifer Elam, Ph.D. >> Scientific Outreach, Human Connectome Project >> Washington University School of Medicine >> Department of Neuroscience, Box 8108 >> 660 South Euclid Avenue >> St. Louis, MO 63110 >> 314-362-9387 >> e...@wustl.edu >> www.humanconnectome.org >> >> ------------------------------ >> *From:*hcp-users-boun...@humanconnectome.org < >> hcp-users-boun...@humanconnectome.org> on behalf of Amrit Kashyap < >> amrit...@gmail.com> >> *Sent:* Tuesday, July 26, 2016 11:34:48 AM >> *To:* Glasser, Matthew >> *Cc:* hcp-users@humanconnectome.org >> *Subject:* Re: [HCP-Users] Workbench Tutorial Data >> >> Yes, I am using that because I thought that was the most processed data >> available. I think someone might have spatially smoothed this raw signal >> and then added it to the tutorial data? >> >> >> On Tue, Jul 26, 2016 at 11:08 AM, Glasser, Matthew <glass...@wustl.edu> >> wrote: >> >>> Are you using the FIX cleaned HCP data? It will have _hp2000_clean in >>> the file name. >>> >>> Peace, >>> >>> Matt. >>> >>> From: <hcp-users-boun...@humanconnectome.org> on behalf of Amrit >>> Kashyap <amrit...@gmail.com> >>> Date: Tuesday, July 26, 2016 at 9:52 AM >>> To: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> >>> Subject: [HCP-Users] Workbench Tutorial Data >>> >>> Hey HCP, this might not be the correct place to post this, but I have >>> been using the rsfMRI data provided by the HCP workbench tutorial in scene >>> 4 (CP10101). It looks like there has been some preprocessing done to the >>> rsfMRI dtseries but I am not sure what it is. My own analysis techniques >>> seem to work pretty well on this processed data but perform pretty poorly >>> on the raw data. Is there any documentation/paper you could direct me to? >>> Thanks >>> Amrit >>> >>> _______________________________________________ >>> HCP-Users mailing list >>> HCP-Users@humanconnectome.org >>> http://lists.humanconnectome.org/mailman/listinfo/hcp-users >>> >>> >>> ------------------------------ >>> >>> The materials in this message are private and may contain Protected >>> Healthcare Information or other information of a sensitive nature. If you >>> are not the intended recipient, be advised that any unauthorized use, >>> disclosure, copying or the taking of any action in reliance on the contents >>> of this information is strictly prohibited. If you have received this email >>> in error, please immediately notify the sender via telephone or return mail. >>> >> >> _______________________________________________ >> HCP-Users mailing list >> HCP-Users@humanconnectome.org >> http://lists.humanconnectome.org/mailman/listinfo/hcp-users >> > > > ------------------------------ > > The materials in this message are private and may contain Protected > Healthcare Information or other information of a sensitive nature. If you > are not the intended recipient, be advised that any unauthorized use, > disclosure, copying or the taking of any action in reliance on the contents > of this information is strictly prohibited. If you have received this email > in error, please immediately notify the sender via telephone or return mail. > _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
